HotNet pathway analysis of mutation and copy number data

Kidney Renal Clear Cell Carcinoma (Primary solid tumor)

23 September 2013 | analyses__2013_09_23

Maintainer Information

Citation Information

Maintained by Hailei Zhang (Broad Institute)

Cite as Broad Institute TCGA Genome Data Analysis Center (2013): HotNet pathway analysis of mutation and copy number data. Broad Institute of MIT and Harvard. doi:10.7908/C1HH6HF6

- Overview

+ Introduction

- Summary

There were 24 significant subnetworks identified in HotNet analysis.

- Results

- Significant subnetworks

HotNet identifies 24 altered subnetworks based on the matched somatic mutation and copy number alterations data. Table 1 showes the top 10 significant subnetworks.

Table 1. Get Full Table Top 10 out of 24 subnetworks in ranked by p value. The last column of RepeatTimes shows how many times the subnetwork was picked up in differenct delta values.

Network	No.ofgenes	p-value	RepeatTimes
ACVR2B(382),SYNJ2BP(1),IGSF1(30),SYNJ2(117)	4	0.005	2
CR2(55),CR1(60),C1QA(70),CD55(55)	4	0.005	2
DPPA2(92),ZNF250(65),PBXIP1(56),MOAP1(1)	4	0.005	2
IVL(56),EVPL(31),SPRR2A(55),SPRR3(55)	4	0.005	2
NDRG1(64),HNRNPH1(276),TOM1L1(30),PDPN(70)	4	0.005	2
RFX6(115),KCNRG(62),CDK18(55),CCNK(2)	4	0.005	2
ROBO1(248),ROBO2(271),SLIT3(277),SRGAP2(55)	4	0.005	2
SPEN(80),MSX2(277),SOX9(29),GTF2F2(62)	4	0.005	2
ARHGEF11(56),PLXNA1(92),PLXNB1(381)	3	0.044	1
CACYBP(56),S100A12(55),SIAH2(92)	3	0.044	1

+ Methods & Data

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